69 Works

Differentially expressed genes of Peromyscus leucopus fibroblast cultures treated with lipopolysaccharide or buffer alone

Alan Barbour, Youwen Zhang, Ana Milovic & Hippokratis Kiaris
This experiment and its results were part of a larger study of the differential responses of the white-footed deermouse Peromyscus leucopus and the house mouse Mus musculus to single injections of lipopolysaccharide (LPS). The entire study is presented in the associated manuscript in submission and in the listed pre-print. The aim of this particular experiment was to identify differentially expressed genes (DEG) of fibroblast cultures of P. leucopus. The experiment identified 543 DEGs that were...

Data from: Widespread grounding line retreat of Totten Glacier, East Antarctica, over the 21st century

Tyler Pelle, Mathieu Morlighem, Helene Seroussi & Yoshihiro Nakayama
Totten Glacier, the primary ice discharger of East Antarctica, contains 3.85 m sea level rise equivalent ice mass (SLRe) and has displayed ocean-driven dynamic change since at least the early 2000s. We project Totten’s evolution through 2100 in a fully coupled ice-ocean model, forced at the ocean boundaries with anomalies in CMIP6 projected temperature, salinity, and velocity. Consistent with previous studies, the Antarctic Slope Current continues to modulate warm water inflow towards Totten in future...

Experimental test of the combined effects of water availability and flowering time on pollinator visitation and seed set

M. Kate Gallagher & Diane Campbell
Climate change is likely to alter both flowering phenology and water availability for plants. Either of these changes alone can affect pollinator visitation and plant reproductive success. The relative impacts of phenology and water, and whether they interact in their impacts on plant reproductive success remain, however, largely unexplored. We manipulated flowering phenology and soil moisture in a factorial experiment with the subalpine perennial Mertensia ciliata (Boraginaceae). We examined responses of floral traits, floral abundance,...

Monitoring marine bound debris using UAS on the US-Mexico Border

Jochen Schubert, Napoleon Gudino, Steven Wright & Waylon Matson
The Tijuana river estuary suffers from overwhelming solid-waste contamination such as marine bound plastics, tires, and sediment. Funded by the US EPA's Border 2020 program (SOLTA-C-19-008), this project intends to establish a framework for bi-national monitoring of trans-boundary, marine bound trash (TBMBT) using light-weight unmanned aerial systems (UASs), also known as drones. The developed framework is intended to benefit 1) border authorities through the establishment of a low-cost, minimally invasive, operational standard to monitor TBMBT...

Seismic detection of oceanic internal gravity waves from subaerial seismometers

Kristen Davis, Heather Shaddox, Emily Brodsky & Thorne Lay
Oceanic internal gravity waves propagate along density stratification within the water column and are ubiquitous. They can propagate thousands of kilometers before breaking in shoaling bathymetry and the ensuing turbulent mixing affects coastal processes and climate feedbacks. Despite their importance, internal waves are intrinsically difficult to detect as they result in only minor amplitudedeflection of the sea surface; the need for global detection and long time series of internal waves motivates a search for geophysical...

Dataset for: Fast retreat of Pope, Smith, and Kohler glaciers in West Antarctica observed by satellite interferometry

Pietro Milillo, Eric Rignot, Paola Rizzoli, Bernd Scheuchl, Jeremie Mouginot, Jose Luis Bueso Bello, Pau Prats Iraola & Luigi Dini
Pope, Smith, and Kohler glaciers, in the Amundsen Sea Embayment of West Antarctica, have experienced enhanced ocean-induced ice-shelf melt, glacier acceleration, ice thinning, and grounding line retreat in the past thirty years, in a glaciological setting with retrograde bedrock slopes conducive to marine ice sheet instability. Here we present observations of the grounding line retreat of these glaciers since 2014 using a constellation of interferometric radar satellites with a short revisit cycle combined with precision...

Drivers and projections of global surface temperature anomalies at the local scale

Susanne Benz, Steven Davis & Jennifer Burney
More than half of the world’s population now lives in urban areas, and trends in rural-to-urban migration are expected to continue through the end of the century. Although cities create efficiencies that drive innovation and economic growth, they also alter the local surface energy balance, resulting in urban temperatures that can differ dramatically from surrounding areas. Here we introduce a global 1-km resolution data set of seasonal and diurnal anomalies in urban surface temperatures relative...

Data from: Positive allosteric modulation of the α7 nicotinic acetylcholine receptor as a treatment for cognitive deficits after traumatic brain injury

David J. Titus, Timothy Johnstone, Nathan H. Johnson, Sidney H. London, Meghana Chapalamadugu, Derk Hogenkamp, Kelvin W. Gee & Coleen M. Atkins
Cognitive impairments are a common consequence of traumatic brain injury (TBI). The hippocampus is a subcortical structure that plays a key role in the formation of declarative memories and is highly vulnerable to TBI. The α7 nicotinic acetylcholine receptor (nAChR) is highly expressed in the hippocampus and reduced expression and function of this receptor are linked with cognitive impairments in Alzheimer’s disease and schizophrenia. Positive allosteric modulation of α7 nAChRs with AVL-3288 enhances receptor currents...

Dataset S1: Results of modeled spectral competition between Synechococcus type IV chromatic acclimaters (CA4) and blue and green light-harvesting specialists

Raisha Lovindeer
This dataset is the output of a one-dimensional model that simulated the time evolution of growth of Synechococcus phycoerythrin pigment types, with low, high, and variable ratios of phycourobilin to phycoerythrobilin (PUB:PEB; pigment types 3a, 3c and 3d, respectively). The model used to generate the output was built on existing published equations of competition for light color within an ocean water column by Stomp and coworkers. Our version of the model was coded in MATLAB,...

Physical processes controlling the rifting of Larsen C Ice Shelf, Antarctica, prior to the calving of iceberg A68 in 2017

Eric Rignot, Eric Larour, Bernd Scheuchl & Mattia Poinelli
The sudden propagation of a major pre-existing rift (full-thickness crack) in late 2016 on the Larsen C Ice Shelf, Antarctica lead to the calving of tabular iceberg A68 in July 2017, one of the largest icebergs on record, posing a threat for the stability of the remainder of the ice shelf. As for other ice shelves, the physical processes that led to the activation of the A68 rift and controlled its propagation have not been...

Non-adaptive molecular evolution of seminal fluid proteins in drosophila

Alberto Civetta, Bahar Patlar, Vivek Jayaswal & Jose Ranz
Seminal fluid proteins (SFPs) are a group of reproductive proteins that are amongst the most evolutionarily divergent known. As SFPs can impact male and female fitness, these proteins have been proposed to evolve under post-copulatory sexual selection (PCSS). However, the fast change of the SFPs can also result from non-adaptive evolution, and the extent to which selective constraints prevent SFPs rapid evolution remains unknown. Using intra- and interspecific sequence information, along with genomics and functional...

Genomic basis for skin phenotype and cold adaptation in the extinct Steller's sea cow

Diana Le Duc, Akhil Velluva, Molly Cassatt-Johnstone, Remi-Andre Olsen, Sina Baleka, Chen-Ching Lin, Johannes R. Lemke, John R. Southon, Alexander Burdin, Ming-Shan Wang, Sonja Grunewald, Wilfried Rosendahl, Ulrich Joger, Sereina Rutschmann, Thomas B. Hildebrandt, Guido Fritsch, James A. Estes, Janet Kelso, Love Dalén, Michael Hofreiter, Beth Shapiro & Torsten Schöneberg
Steller’s sea cow, an extinct sirenian and one of the largest Quaternary mammals, was described by Georg Steller in 1741 and eradicated by humans within 27 years. Here, we complement Steller’s descriptions with paleogenomic data from 12 individuals. We identified convergent evolution between Steller’s sea cow and cetaceans but not extant sirenians, suggesting a role of several genes in adaptation to cold environments. Among these are inactivations of lipoxygenase genes, which in humans and mouse...

Heterogeneity and chemical reactivity of the remote Troposphere defined by aircraft measurements

Hao Guo
The NASA Atmospheric Tomography (ATom) mission built a photochemical climatology of air parcels based on in situ measurements with the NASA DC-8 aircraft along objectively planned profiling transects through the middle of the Pacific and Atlantic Oceans. ATom measured numerous gases and aerosols, particularly the gaseous species driving the chemical budgets of O3 and CH4: i.e., O3, CH4, CO, C2H6, higher alkanes, alkenes, aromatics, NOx, HNO3, HNO4, peroxyacetylnitrate, other organic nitrates, H2O, HCHO, H2O2, and...

The Paris Climate Agreement and future sea level rise from Antartica

Robert M. DeConto, David Pollard, Richard B. Alley, Isabella Velicogna, Edward Gasson, Natalya Gomez, Shaina Sadai, Alan Condron, Daniel M. Gilford, Erica L. Ashe, Robert E. Kopp, Dawei Li & Andrea Dutton

Data from: Analysis of southern California mitigation banks with implications for The Wildlands Conservancy's Sacred Lands Network and Bluff Lake Reserve

Corrina Tapia
I conducted a qualitative analysis of mitigation banks in southern California, and from interviews with nine individuals associated with the banks or with mitigation tools, reveal the overall lack of cohesive understanding of the purpose and integrity of mitigation banks. This reveals the uncertainty in banking but also presents an opportunity to make recommendations on improvements to this prominent tool. This analysis also lends support to The Wildlands Conservancy as they establish their Sacred Lands...

Peromyscus WGCNA supplement

Gabriela Balderrama-Gutierrez, Ana Milovic, Ali Mortazavi & Alan Barbour
P. leucopus also (deer mouse) is a known reservoir for infectious disease such as lyme disease and it is able to survive infections that other rodent models cannot. In this paper we explore P. lecucopus transcriptomic response after LPS stimulus in blood, liver and spleen using RNA-seq and compare it to M. musculus response. When comparing gene response to LPS from different species and tissues, neutrophil associated terms are enriched in the P. leucopus response,...

Untargeted metabolomics molecular features data for plasma of 20 Peromyscus leucopus and 20 Mus musculus treated with LPS or controls

Alan Barbour, Nurul Islam, Ana Milovic & John Belisle
Animals that are competent natural reservoirs of zoonotic diseases commonly suffer little morbidity from the pathogens they persistently harbor. The mechanisms of this infection tolerance and the trade-off costs are poorly understood. We used exposure to a single dose of lipopolysaccharide (LPS) endotoxin as an experimental model of inflammation to compare the responses of the cricentine rodent Peromyscus leucopus, the white-footed deermouse, to that of Mus musculus, the standard laboratory model for pathogenesis studies. Four...

Climatic displacement exacerbates the negative impact of drought on plant performance and associated arthropod abundance

Jordan Croy, Jordan Croy, Jessica Pratt, Daniel Sheng & Kailen Mooney
Climate change is acting on species and modifying communities and ecosystems through changes not only with respect to mean abiotic conditions, but also through increases in the frequency and severity of extreme events. Changes in mean aridity associated with climate change can generate ecotype by environment mismatch (i.e., climatic displacement). At the same time, variability around these shifting means is predicted to increase, resulting in more extreme droughts. We characterized the effects of two axes...

Data for: Topological defects produce kinks in biopolymer filament bundles

Qingda Hu, Maximilian Grill, Elliot Botvinick, Wolfgang Wall, Valentin Slepukhin & Alex Levine
Bundles of stiff filaments are ubiquitous in the living world, found both in the cytoskeleton and in the extracellular medium. These bundles are typically held together by smaller cross-linking molecules. We demonstrate, analytically, numerically, and experimentally, that such bundles can be kinked, that is, have localized regions of high curvature that are long-lived metastable states. We propose three possible mechanisms of kink stabilization: a difference in trapped length of the filament segments between two cross-links,...

Female differential allocation in response to extra-pair offspring and social mate attractiveness

Kerianne Wilson & Nancy Burley
Renewed debate over what benefits females might gain from producing extra-pair offspring emphasizes the possibility that apparent differences in quality between within-pair and extra-pair offspring are confounded by greater maternal investment in extra-pair offspring. Moreover, the attractiveness of a female’s social mate can also influence contributions of both partners to a reproductive attempt. Here we explore the complexities involved in parental investment decisions in response to extra-pair offspring and mate attractiveness with a focus on...

Data from: Antibiotics shift the temperature response curve of Escherichia coli growth

Mauricio Cruz-Loya, Elif Tekin, Tina Manzhu Kang, Natalya Cardona, Natalie Lozano-Huntelman, Alejandra Rodríguez-Verdugo, Van Savage & Pamela Yeh
This publication consists of measurements of the temperature response of Escherichia coli growth in the presence of various antibiotic backgrounds. Growth is measured as the optical density of the corresponding bacterial culture 24 hours after inoculation. Two datasets are included in this submission. The first dataset consists of growth measurements of E. coli cultures at varying temperatures in the presence of a fixed concentration of twelve antibiotics (see table below for full list), and all...

2009 modeled electricity prices from HiGRID for the California grid

Brian Tarroja, Joshua H. Viers, Aditya Sood & Gustavo Facincani Dourado
This dataset was developed to be used in the CenSierraPywr model, created for the project "Optimizing Hydropower Operations While Sustaining Ecosystem Functions in a Changing Climate", for the California Energy Commission. The model that includes hydroeconomic optimization for hydropower production in the Stanislaus and Upper San Joaquin River basins in the Central Sierra Nevada, California. The two basins have high elevation reservoirs that are typically operated to maximize revenue from hydropower production. Therefore, to better...

Milkweeds (Asclepias genus) records in the western U.S.

Nalleli Carvajal Acosta
Species distributions are driven by abiotic and biotic factors, but the importance of variation in the availability and quality of critical resources is poorly understood. Disentangling the relative importance of these factors – abiotic environment, availability of critical resources, and resource quality– will be important to modeling species current distributions and responses to projected climate change. We address these questions using species distribution models (SDMs) for the western monarch butterfly population (Danaus plexippus), whose larvae...

The Space in Between: Overlapping Narratives of Arrival and Departure in Armenian-American Literary and Visual Arts

Talar Chahinian
Having fled Lebanon during the Civil War of 1975-1990, New Jersey-based author, Vehanoush Tekian, the LA-based experimental filmmaker, Hrayr Eulmessekian, and LA-based photographer, Ara Madzounian return to Beirut as a figurative repository of layered trauma. In Tekian’s prose and poetry, Family Tree (1997), Of Nourishment and the Abyss (2000) and Dispersion Poems (2017), in Eulmessekian’s film Bruitage (2006), and in Madzounian’s Birds Nest: A Photographic Essay of Bourj Hammoud (2015), Beirut is presented as an...

Hippocampal ensembles represent sequential relationships among an extended sequence of nonspatial events

Babak Shahbaba, Lingge Li, Forest Agostinelli, Mansi Saraf, Derenik Haghverdian, Gabriel Elias, Pierre Baldi, Norbert Fortin & Keiland Cooper
The hippocampus is critical to the temporal organization of our experiences. Although this fundamental capacity is conserved across modalities and species, its underlying neuronal mechanisms remain unclear. Here we recorded hippocampal activity as rats remembered an extended sequence of nonspatial events and, using novel statistical methods, uncovered new forms of sequential organization in ensemble activity important for order memory judgments. Specifically, we discovered that hippocampal ensembles provide significant temporal coding throughout nonspatial event sequences, differentiate...

Registration Year

  • 2021

Resource Types

  • Dataset
  • Text
  • Journal Article
  • Output Management Plan


  • University of California, Irvine
  • University of California Los Angeles
  • University of Massachusetts Amherst
  • Jet Propulsion Lab
  • Colorado State University
  • University of California, Santa Cruz
  • University of California, Davis
  • Estación Biológica de Doñana
  • California State University, Long Beach
  • University of California, Merced